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Conserved domains on  [gi|1958786033|ref|XP_038969209|]
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DNA repair protein RAD51 homolog 2 isoform X3 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 67-288 3.76e-80

RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51B, together with the other RAD51 paralogs, RAD51C, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


:

Pssm-ID: 410901 [Multi-domain]  Cd Length: 222  Bit Score: 243.00  E-value: 3.76e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  67 VTGPPGCGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAESRFPQYF----NTEEKLLLTSSRVHLCQ 142
Cdd:cd19493    16 ITGASGSGKTQFALTLASSAAMPARKGGLDGGVLYIDTESKFSAERLAEIAEARFPEAFsgfmEENERAEEMLKRVAVVR 95

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 143 ELTCEGLLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPQLqGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITT 222
Cdd:cd19493    96 VTTLAQLLERLPNLEEHILSSGVRLVVIDSIAALVRREFGGSD-GEVTERHNALAREASSLKRLAEEFRIAVLVTNQATT 174

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1958786033 223 HlsgalpsqadlvspaddlsPSEGASGSSCLVAALGNTWSHCVNTRLILQYLDS-ERRQILIAKSPV 288
Cdd:cd19493   175 H-------------------FGDAGDGSSGVTAALGDAWAHAVNTRLRLERCLLqLRRVLEIVKSPL 222
 
Name Accession Description Interval E-value
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 67-288 3.76e-80

RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51B, together with the other RAD51 paralogs, RAD51C, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410901 [Multi-domain]  Cd Length: 222  Bit Score: 243.00  E-value: 3.76e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  67 VTGPPGCGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAESRFPQYF----NTEEKLLLTSSRVHLCQ 142
Cdd:cd19493    16 ITGASGSGKTQFALTLASSAAMPARKGGLDGGVLYIDTESKFSAERLAEIAEARFPEAFsgfmEENERAEEMLKRVAVVR 95

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 143 ELTCEGLLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPQLqGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITT 222
Cdd:cd19493    96 VTTLAQLLERLPNLEEHILSSGVRLVVIDSIAALVRREFGGSD-GEVTERHNALAREASSLKRLAEEFRIAVLVTNQATT 174

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1958786033 223 HlsgalpsqadlvspaddlsPSEGASGSSCLVAALGNTWSHCVNTRLILQYLDS-ERRQILIAKSPV 288
Cdd:cd19493   175 H-------------------FGDAGDGSSGVTAALGDAWAHAVNTRLRLERCLLqLRRVLEIVKSPL 222
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 72-302 1.75e-33

Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ATPase RecA protein.


Pssm-ID: 462471 [Multi-domain]  Cd Length: 255  Bit Score: 123.95  E-value: 1.75e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  72 GCGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAEsRFPqyFNTEEKLL-LTSSRVHlcqelTCEGLL 150
Cdd:pfam08423  47 RTGKTQLCHTLCVTCQLPLEMGGGEGKALYIDTEGTFRPERLVAIAE-RYG--LDPEDVLDnVAYARAY-----NSEHQM 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 151 QRLESLEEEIISKGVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSG-ALP 229
Cdd:pfam08423 119 QLLQQAAAMMSESRFALLIVDSATALYRTDFSG--RGELAERQQHLAKFLRTLQRLADEFGVAVVITNQVVAQVDGaAGM 196

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1958786033 230 SQADLVSPaddlspsegasgssclvaALGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEG 302
Cdd:pfam08423 197 FSGDPKKP------------------IGGHIMAHASTTRLSLRKGRGEQRICKIYDSPCLPESEAVFAIGSGG 251
PTZ00035 PTZ00035
Rad51 protein; Provisional
 73-304 5.49e-25

Rad51 protein; Provisional


Pssm-ID: 185407 [Multi-domain]  Cd Length: 337  Bit Score: 102.77  E-value: 5.49e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  73 CGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAEsRFPqyFNTEEKLlltsSRVHLCQELTCEGLLQR 152
Cdd:PTZ00035  129 TGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIAE-RFG--LDPEDVL----DNIAYARAYNHEHQMQL 201

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 153 LESLEEEIISKGVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSGALPSQA 232
Cdd:PTZ00035  202 LSQAAAKMAEERFALLIVDSATALFRVDYSG--RGELAERQQHLGKFLRALQKLADEFNVAVVITNQVMADVDGASMFVA 279

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1958786033 233 DLVSPADdlspsegasgssclvaalGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEGLV 304
Cdd:PTZ00035  280 DPKKPIG------------------GHIIAHASTTRLSLRKGRGEQRICKIYDSPNLPESEAVFAISEGGII 333
recomb_DMC1 TIGR02238
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ...
 73-303 3.01e-24

meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.


Pssm-ID: 131292 [Multi-domain]  Cd Length: 313  Bit Score: 100.62  E-value: 3.01e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  73 CGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAESrfpqyFNTEEKLLLTSsrVHLCQELTCEGLLQR 152
Cdd:TIGR02238 107 CGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAER-----FGVDPDAVLDN--ILYARAYTSEHQMEL 179

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 153 LESLEEEIISKGVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSGALPSQA 232
Cdd:TIGR02238 180 LDYLAAKFSEEPFRLLIVDSIMALFRVDFSG--RGELSERQQKLAQMLSRLNKISEEFNVAVFVTNQVQADPGATMTFIA 257

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958786033 233 DLVSPADdlspsegasgssclvaalGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEGL 303
Cdd:TIGR02238 258 DPKKPIG------------------GHVLAHASTTRILLRKGRGEERVAKLYDSPDMPEAEASFQITEGGI 310
RepA COG3598
RecA-family ATPase [Replication, recombination and repair];
67-300 5.06e-10

RecA-family ATPase [Replication, recombination and repair];


Pssm-ID: 442817 [Multi-domain]  Cd Length: 313  Bit Score: 59.53  E-value: 5.06e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  67 VTGPPGCGKTQFCIMMSVLATLPTRLGGLE---GAVLYIDTE--SAFTAERLVEIAESRFPQYFNTEEKLLLTSSRvhlc 141
Cdd:COG3598    18 LAGPPGTGKSFLALQLAAAVAAGGPWLGRRvppGKVLYLAAEddRGELRRRLKALGADLGLPFADLDGRLRLLSLA---- 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 142 QELTCEGLLQRlesLEEEIISKGVKLVIVDSIASVVRKEfdpqlqgniKERNKFLGKGASLLKYLSGEFSVPVILtnqiT 221
Cdd:COG3598    94 GDLDDTDDLEA---LERAIEEEGPDLVVIDPLARVFGGD---------ENDAEEMRAFLNPLDRLAERTGAAVLL----V 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 222 THLSGAlpsqadlvspADDLSPSEGASGSSCLVAAlgntwshcVNTRLILQYL-DSERRQILIAKSPVAPLTSFVYTIKG 300
Cdd:COG3598   158 HHTGKG----------GAGKDSGDRARGSSALRGA--------ARSVLVLSREkGEDLRVLTRAKSNYGPEIALRWDNGG 219
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 67-228 2.70e-05

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 43.52  E-value: 2.70e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033   67 VTGPPGCGKTQFCIMMSVLatlptrLGGLEGAVLYIDTESAFTAERLVEIAESRFPQYFNTEekllltssrvhlcQELTC 146
Cdd:smart00382   7 IVGPPGSGKTTLARALARE------LGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGS-------------GELRL 67

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  147 EGLLQRLESLeeeiiskGVKLVIVDSIASVVRKEFDPQLQGNIKERNKFLgkgasllkyLSGEFSVPVILTNQITTHLSG 226
Cdd:smart00382  68 RLALALARKL-------KPDVLILDEITSLLDAEQEALLLLLEELRLLLL---------LKSEKNLTVILTTNDEKDLGP 131


                   ..
gi 1958786033  227 AL 228
Cdd:smart00382 132 AL 133
 
Name Accession Description Interval E-value
Rad51B cd19493
RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 67-288 3.76e-80

RAD51B recombinase; RAD51B recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51B, together with the other RAD51 paralogs, RAD51C, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410901 [Multi-domain]  Cd Length: 222  Bit Score: 243.00  E-value: 3.76e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  67 VTGPPGCGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAESRFPQYF----NTEEKLLLTSSRVHLCQ 142
Cdd:cd19493    16 ITGASGSGKTQFALTLASSAAMPARKGGLDGGVLYIDTESKFSAERLAEIAEARFPEAFsgfmEENERAEEMLKRVAVVR 95

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 143 ELTCEGLLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPQLqGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITT 222
Cdd:cd19493    96 VTTLAQLLERLPNLEEHILSSGVRLVVIDSIAALVRREFGGSD-GEVTERHNALAREASSLKRLAEEFRIAVLVTNQATT 174

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1958786033 223 HlsgalpsqadlvspaddlsPSEGASGSSCLVAALGNTWSHCVNTRLILQYLDS-ERRQILIAKSPV 288
Cdd:cd19493   175 H-------------------FGDAGDGSSGVTAALGDAWAHAVNTRLRLERCLLqLRRVLEIVKSPL 222
RecA-like cd01393
RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA ...
 67-273 1.65e-52

RecA family; RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs RadA and RadB.


Pssm-ID: 410881 [Multi-domain]  Cd Length: 185  Bit Score: 171.00  E-value: 1.65e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  67 VTGPPGCGKTQFCIMMSVLATLptrlggLEGAVLYIDTESAFTAERLVEIAEsrfpQYFNTEEKLLLTSSRVHLCQELTC 146
Cdd:cd01393     6 IYGPPGSGKTQLALQLAANALL------LGGGVVWIDTEGAFPPSRLVQILE----ASPSSELELAEALSRLLYFRPPDT 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 147 EGLLQRLESLEEEIIS-KGVKLVIVDSIASVVRKEFDPQLQG--NIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTH 223
Cdd:cd01393    76 LAHLLALDSLPESLFPpPNTSLVVVDSVSALFRKAFPRGGDGdsSSSLRARLLSQLARALQKLAAQFNLAVVVTNQVTTK 155

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1958786033 224 LsgalpsqadlvspaddlspsEGASGSSCLVAALGNTWSHCVNTRLILQY 273
Cdd:cd01393   156 I--------------------RGGSGASLVPPALGNTWEHSVSTRLLLYR 185
XRCC3 cd19491
XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells ...
 69-288 4.57e-37

XRCC3 recombinase; XRCC3 (X-ray repair complementing defective repair in Chinese hamster cells 3) recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. XRCC3, together with the other RAD51 paralogs, RAD51B, RAD51C, RAD51D, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410899 [Multi-domain]  Cd Length: 250  Bit Score: 133.19  E-value: 4.57e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  69 GPPGCGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAESRFPQYFNTEEKLLLTSSRVHLCQEL---- 144
Cdd:cd19491    19 GESGAGKTQLCLQLALTVQLPRELGGLGGGAVYICTESSFPSKRLQQLASSLPKRYHLEKAKNFLDNIFVEHVADLetle 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 145 TCegLLQRLESLeeeIISKGVKLVIVDSIASVVRKEFDPQlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHL 224
Cdd:cd19491    99 HC--LNYQLPAL---LERGPIRLVVIDSIAALFRSEFDTS-RSDLVERAKYLRRLADHLKRLADKYNLAVVVVNQVTDRF 172

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1958786033 225 SGALP-SQADLVSPADDLSPSEGASGSSCLVAALGNTWSHCVNTRLILQYLDSERRQILIAKSPV 288
Cdd:cd19491   173 DSSSDaSGLGVLDYLSQFSSFSGGVSGNRKVPALGLTWANLVNTRLMLSRTPKRITDSSAASISV 237
Rad51 pfam08423
Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ...
 72-302 1.75e-33

Rad51; Rad51 is a DNA repair and recombination protein and is a homolog of the bacterial ATPase RecA protein.


Pssm-ID: 462471 [Multi-domain]  Cd Length: 255  Bit Score: 123.95  E-value: 1.75e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  72 GCGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAEsRFPqyFNTEEKLL-LTSSRVHlcqelTCEGLL 150
Cdd:pfam08423  47 RTGKTQLCHTLCVTCQLPLEMGGGEGKALYIDTEGTFRPERLVAIAE-RYG--LDPEDVLDnVAYARAY-----NSEHQM 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 151 QRLESLEEEIISKGVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSG-ALP 229
Cdd:pfam08423 119 QLLQQAAAMMSESRFALLIVDSATALYRTDFSG--RGELAERQQHLAKFLRTLQRLADEFGVAVVITNQVVAQVDGaAGM 196

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1958786033 230 SQADLVSPaddlspsegasgssclvaALGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEG 302
Cdd:pfam08423 197 FSGDPKKP------------------IGGHIMAHASTTRLSLRKGRGEQRICKIYDSPCLPESEAVFAIGSGG 251
Rad51C cd19492
RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 69-287 3.47e-33

RAD51C recombinase; RAD51C recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51C, together with the other RAD51 paralogs, RAD51B, RAD51D, XRCC3, and XRCC2, helps recruit RAD51 to the break site. Additionally, RAD51C acts as a mediator in the early steps of DNA damage signaling.


Pssm-ID: 410900 [Multi-domain]  Cd Length: 172  Bit Score: 120.41  E-value: 3.47e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  69 GPPGCGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAerlveiaesrfpQYFnteekllltssRVHLCQELTceG 148
Cdd:cd19492     8 GVPGVGKTQLCMQLAVNVQIPKCFGGLAGEAIYIDTEGSFNI------------HYF-----------RVHDYVELL--A 62

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 149 LLQRLES-LEEEiisKGVKLVIVDSIASVVRKEFDpqlqgNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSGa 227
Cdd:cd19492    63 LINSLPKfLEDH---PKVKLIVVDSIAFPFRHDFD-----DLAQRTRLLNGLAQLLHSLARQHNLAVVLTNQVTTKISE- 133

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 228 lpsqadlvspaddlspsegaSGSSCLVAALGNTWSHCVNTRLILqYLDSERRQILIAKSP 287
Cdd:cd19492   134 --------------------DGQSQLVPALGESWSHACTTRLFL-TWDEKQRFAHLYKSP 172
Rad51_DMC1_archRadA cd01123
recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic ...
 69-303 5.69e-27

recombinase Rad51, DMC1, and archaeal RadA; This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal protein RadA. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .


Pssm-ID: 410868 [Multi-domain]  Cd Length: 234  Bit Score: 106.08  E-value: 5.69e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  69 GPPGCGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAesrfpQYFNTEEKLLLtsSRVHLCQELTCEG 148
Cdd:cd01123    26 GEFRTGKTQLCHTLAVTCQLPIDRGGGEGKAIYIDTEGTFRPERLRAIA-----QRFGLDPDDVL--DNVAYARAFNSDH 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 149 LLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSGAL 228
Cdd:cd01123    99 QTQLLDQAAAMMVESRFKLLIVDSATALYRTDYSG--RGELSARQMHLAKFLRMLQRLADEFGVAVVVTNQVVAQVDGAM 176

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1958786033 229 PSQADLVSPADdlspsegasgssclvaalGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEGL 303
Cdd:cd01123   177 MFAADPKKPIG------------------GNILAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAVFAITADGV 233
DMC1 cd19514
homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in ...
 73-303 7.60e-27

homologous-pairing protein DMC1; DMC1 has a central role in homologous recombination in meiosis. It assembles at the sites of programmed DNA double-strand breaks and carries out a search for allelic DNA sequences located on homologous chromatids. It forms octameric rings.


Pssm-ID: 410922 [Multi-domain]  Cd Length: 236  Bit Score: 105.52  E-value: 7.60e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  73 CGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAESrfpqyFNTEEKLLLTSsrVHLCQELTCEGLLQR 152
Cdd:cd19514    30 TGKTQLSHTLCVTAQLPGSMGGGGGKVAYIDTEGTFRPDRIRPIAER-----FGVDHDAVLDN--ILYARAYTSEHQMEL 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 153 LESLEEEIISKGV-KLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSGALPSQ 231
Cdd:cd19514   103 LDYVAAKFHEEAVfRLLIIDSIMALFRVDFSG--RGELAERQQKLAQMLSRLQKISEEYNVAVFITNQVTADPGAAMTFQ 180

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1958786033 232 ADLVSPADdlspsegasgssclvaalGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEGL 303
Cdd:cd19514   181 ADPKKPIG------------------GHILAHASTTRISLRKGRGEERIAKIYDSPDLPENEATFAITAGGI 234
Rad51D cd19489
RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair ...
 69-286 8.80e-27

RAD51D recombinase; RAD51D recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51D, together with the other RAD51 paralogs, RAD51B, RAD51C, XRCC3, and XRCC2, helps recruit RAD51 to the break site.


Pssm-ID: 410897 [Multi-domain]  Cd Length: 209  Bit Score: 104.64  E-value: 8.80e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  69 GPPGCGKTQFCimMSVLATLPTRLGGlegAVLYIDTESAFTAERLVEIAESRfpqyFNTEEKLLLTSSRVHLCQELTCEG 148
Cdd:cd19489    14 GESSSGKTQLC--LTAAANVASRSGQ---NVLYIDTKSSFSARRLAQILKSR----AQDAEEIDKALQRIRVVRVFDPYE 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 149 LLQRLESL------EEEIISKGVKLVIVDSIASVvrkeFDPQLQGNIK-ERNKFLGKGASLLKYLSGEFSVPVILTNQIT 221
Cdd:cd19489    85 LLDLLEELrntlsqQQENLYSRLKLVIIDSLSAL----ISPLLGGSKHsEGHALLASLARLLKKLAAEYQIAVLVTNLTV 160

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 222 ThlsgalpsqadlvspaddlSPSEGASGSSClvAALGNTWSHCVNTRLILQYLD-----SERRQILIAKS 286
Cdd:cd19489   161 R-------------------GGDGGQQGSTK--PALGEYWESVPSTRLLLSRDEndpeeSGVCTATLLKS 209
PTZ00035 PTZ00035
Rad51 protein; Provisional
 73-304 5.49e-25

Rad51 protein; Provisional


Pssm-ID: 185407 [Multi-domain]  Cd Length: 337  Bit Score: 102.77  E-value: 5.49e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  73 CGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAEsRFPqyFNTEEKLlltsSRVHLCQELTCEGLLQR 152
Cdd:PTZ00035  129 TGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIAE-RFG--LDPEDVL----DNIAYARAYNHEHQMQL 201

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 153 LESLEEEIISKGVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSGALPSQA 232
Cdd:PTZ00035  202 LSQAAAKMAEERFALLIVDSATALFRVDYSG--RGELAERQQHLGKFLRALQKLADEFNVAVVITNQVMADVDGASMFVA 279

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1958786033 233 DLVSPADdlspsegasgssclvaalGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEGLV 304
Cdd:PTZ00035  280 DPKKPIG------------------GHIIAHASTTRLSLRKGRGEQRICKIYDSPNLPESEAVFAISEGGII 333
Rad51 cd19513
RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous ...
 73-302 1.31e-24

RAD51D recombinase; RAD51 recombinase plays an essential role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. RAD51 is recruited to the break site with the help of its paralogs, RAD51D, RAD51B, RAD51C, XRCC3, and XRCC2, where it forms long helical polymers which wrap around the ssDNA tail at the break which leads to pairing and strand invasion.


Pssm-ID: 410921 [Multi-domain]  Cd Length: 235  Bit Score: 99.70  E-value: 1.31e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  73 CGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAEsRFPqyFNTEEKL-LLTSSRVHLCQELTceGLLQ 151
Cdd:cd19513    30 TGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAE-RYG--LNGEDVLdNVAYARAYNTDHQM--QLLI 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 152 RLESLEEEiiSKgVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSGALPSQ 231
Cdd:cd19513   105 QASAMMAE--SR-YALLIVDSATALYRTDYSG--RGELSARQMHLAKFLRMLQRLADEFGVAVVITNQVVAQVDGAAMFA 179

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958786033 232 ADLVSPADdlspsegasgssclvaalGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEG 302
Cdd:cd19513   180 GDPKKPIG------------------GNIMAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAVFAITEDG 232
recomb_DMC1 TIGR02238
meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA ...
 73-303 3.01e-24

meiotic recombinase Dmc1; This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.


Pssm-ID: 131292 [Multi-domain]  Cd Length: 313  Bit Score: 100.62  E-value: 3.01e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  73 CGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAESrfpqyFNTEEKLLLTSsrVHLCQELTCEGLLQR 152
Cdd:TIGR02238 107 CGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAER-----FGVDPDAVLDN--ILYARAYTSEHQMEL 179

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 153 LESLEEEIISKGVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSGALPSQA 232
Cdd:TIGR02238 180 LDYLAAKFSEEPFRLLIVDSIMALFRVDFSG--RGELSERQQKLAQMLSRLNKISEEFNVAVFVTNQVQADPGATMTFIA 257

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958786033 233 DLVSPADdlspsegasgssclvaalGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEGL 303
Cdd:TIGR02238 258 DPKKPIG------------------GHVLAHASTTRILLRKGRGEERVAKLYDSPDMPEAEASFQITEGGI 310
archRadA cd19515
archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a ...
 65-304 7.45e-23

archaeal recombinase Rad51/RadA; This group includes the archaeal protein RadA which is a homolog of Rad51. RAD51 recombinase plays an essential role in DNA repair by homologous recombination (HR)


Pssm-ID: 410923 [Multi-domain]  Cd Length: 233  Bit Score: 94.74  E-value: 7.45e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  65 QTVT---GPPGCGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAESR------------FPQYFNTEE 129
Cdd:cd19515    19 QAITevfGEFGSGKTQLCHQLAVNVQLPPEEGGLNGKAVYIDTENTFRPERIMQMAKALgldpdevldniyVARAYNSNH 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 130 KLLLtssrvhlcqeltcegllqrLESLeEEIISKG--VKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLS 207
Cdd:cd19515    99 QMLL-------------------VEKA-EDLIKEGnnIKLLIVDSLTSHFRAEYVG--RGTLAERQQKLNKHLHDLHRLA 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 208 GEFSVPVILTNQItthlsgalpsqadlvspaddlSPSEGASGSSCLVAALGNTWSHCVNTRLILQYLDSERRQILIAKSP 287
Cdd:cd19515   157 DLYNIAVLVTNQV---------------------MAKPDAFFGDPTQAIGGHILGHAATFRVYLRKGKGGKRIARLVDSP 215

                         250
                  ....*....|....*..
gi 1958786033 288 VAPLTSFVYTIKGEGLV 304
Cdd:cd19515   216 HLPEGEAVFRITEKGIE 232
PLN03186 PLN03186
DNA repair protein RAD51 homolog; Provisional
 73-303 1.19e-22

DNA repair protein RAD51 homolog; Provisional


Pssm-ID: 178728 [Multi-domain]  Cd Length: 342  Bit Score: 96.34  E-value: 1.19e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  73 CGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAEsRFPqyFNTEEKLlltsSRVHLCQELTCEGLLQR 152
Cdd:PLN03186  134 TGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAE-RFG--LNGADVL----ENVAYARAYNTDHQSEL 206

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 153 LESLEEEIISKGVKLVIVDSIASVVRKEFDPQlqGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSGALPSQA 232
Cdd:PLN03186  207 LLEAASMMAETRFALMIVDSATALYRTEFSGR--GELSARQMHLGKFLRSLQRLADEFGVAVVITNQVVAQVDGSAFFAG 284

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958786033 233 DLVSPADdlspsegasgssclvaalGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEGL 303
Cdd:PLN03186  285 PQLKPIG------------------GNIMAHASTTRLALRKGRGENRICKVISSPCLPEAEARFSISSEGV 337
radA PRK04301
DNA repair and recombination protein RadA; Validated
 65-220 5.98e-22

DNA repair and recombination protein RadA; Validated


Pssm-ID: 235273 [Multi-domain]  Cd Length: 317  Bit Score: 94.17  E-value: 5.98e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  65 QTVT---GPPGCGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAESR------------FPQYFNTEE 129
Cdd:PRK04301  102 QSITefyGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEALgldpdevldnihVARAYNSDH 181

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 130 KLLLtssrvhlcqeltcegllqrLESLeEEIISKG--VKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLS 207
Cdd:PRK04301  182 QMLL-------------------AEKA-EELIKEGenIKLVIVDSLTAHFRAEYVG--RGNLAERQQKLNKHLHDLLRLA 239

                         170
                  ....*....|...
gi 1958786033 208 GEFSVPVILTNQI 220
Cdd:PRK04301  240 DLYNAAVVVTNQV 252
recomb_RAD51 TIGR02239
DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein ...
 73-303 5.35e-21

DNA repair protein RAD51; This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).


Pssm-ID: 274048 [Multi-domain]  Cd Length: 316  Bit Score: 91.32  E-value: 5.35e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  73 CGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAEsRFPqyFNTEEKLL-LTSSRVHLCQELTceGLLQ 151
Cdd:TIGR02239 107 TGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAE-RYG--LNPEDVLDnVAYARAYNTDHQL--QLLQ 181

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 152 RLESLEEEiiSKgVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITTHLSGALPS- 230
Cdd:TIGR02239 182 QAAAMMSE--SR-FALLIVDSATALYRTDFSG--RGELSARQMHLARFLRSLQRLADEFGVAVVITNQVVAQVDGAGSMf 256

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1958786033 231 QADLVSPADdlspsegasgssclvaalGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEGL 303
Cdd:TIGR02239 257 AGDPKKPIG------------------GNIMAHASTTRLSLRKGRGEQRICKIYDSPCLPESEAMFAIYEDGI 311
XRCC2 cd19490
XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells ...
 67-272 7.02e-21

XRCC2 recombinase; XRCC2 (X-ray repair complementing defective repair in Chinese hamster cells 2) recombinase, a RAD51 paralog, plays an important role in DNA repair by homologous recombination (HR). HR is an important error-free repair mechanism for chromosomal double-strand break (DSB) which otherwise leads to cell cycle arrest and death. XRCC2, together with the other RAD51 paralogs, RAD51B, RAD51C, RAD51D, and XRCC3, helps recruit RAD51 to the break site.


Pssm-ID: 410898 [Multi-domain]  Cd Length: 226  Bit Score: 89.33  E-value: 7.02e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  67 VTGPPGCGKTQFCIMMSVLATLPT-----RLGGLEGAVLYIDTESAFTAERLVEIAESRFPQ----------YFNTEEKL 131
Cdd:cd19490     6 ITGPSGSGKTELLYHLAARCILPSswggvPLGGLEAAVVFIDTDGRFDILRLRSILEARIRAaiqaanssddEEDVEEIA 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 132 LLTSSRVHL--CQELtcEGLLQRLESLEEEIIS----KGVKLVIVDSIAS---VVRKEFDPQLQGNIKERNkFLGKGASL 202
Cdd:cd19490    86 RECLQRLHIfrCHSS--LQLLATLLSLENYLLSlsanPELGLLLIDSISAfywQDRFSAELARAAPLLQEA-ALRAILRE 162

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 203 LKYLSGEFSVPVILTNQITTHLSGALPSQADLVSPADDLSPSEGASgssclvaALGNTWSHCVNTRLILQ 272
Cdd:cd19490   163 LRRLRRRFQLVVIATKQALFPGKSASTDNPAANNAVSKASAPSHRE-------YLPRPWQRLVTHRLVLS 225
PLN03187 PLN03187
meiotic recombination protein DMC1 homolog; Provisional
 73-304 8.76e-21

meiotic recombination protein DMC1 homolog; Provisional


Pssm-ID: 215620 [Multi-domain]  Cd Length: 344  Bit Score: 91.38  E-value: 8.76e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  73 CGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAESrfpqyFNTEEKLLLTS---SRVHlcqelTCEGL 149
Cdd:PLN03187  137 SGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAER-----FGMDADAVLDNiiyARAY-----TYEHQ 206

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 150 LQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQItthlsgalp 229
Cdd:PLN03187  207 YNLLLGLAAKMAEEPFRLLIVDSVIALFRVDFTG--RGELAERQQKLAQMLSRLTKIAEEFNVAVYMTNQV--------- 275

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1958786033 230 sQADlvspaddlsPSEGASGSSCLVAALGNTWSHCVNTRLILQYLDSERRQILIAKSPVAPLTSFVYTIKGEGLV 304
Cdd:PLN03187  276 -IAD---------PGGGMFISDPKKPAGGHVLAHAATIRLMLRKGKGEQRVCKVFDAPNLPEAEAEFQITSGGIM 340
recomb_radA TIGR02236
DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA ...
 65-220 9.94e-20

DNA repair and recombination protein RadA; This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 131290 [Multi-domain]  Cd Length: 310  Bit Score: 87.88  E-value: 9.94e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  65 QTVT---GPPGCGKTQFCIMMSVLATLPTRLGGLEGAVLYIDTESAFTAERLVEIAESR------------FPQYFNTEE 129
Cdd:TIGR02236  95 QAITevfGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAEARgldpdevlkniyVARAYNSNH 174

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 130 KLLLTSSRVHLCQELtcegllqrlesleeeiiSKGVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGE 209
Cdd:TIGR02236 175 QMLLVEKAEDLIKEL-----------------NNPVKLLIVDSLTSHFRAEYVG--RGALAERQQKLNKHLHDLLRLADL 235

                         170
                  ....*....|.
gi 1958786033 210 FSVPVILTNQI 220
Cdd:TIGR02236 236 YNAAVVVTNQV 246
radB PRK09361
DNA repair and recombination protein RadB; Provisional
 66-222 9.19e-19

DNA repair and recombination protein RadB; Provisional


Pssm-ID: 236482 [Multi-domain]  Cd Length: 225  Bit Score: 83.37  E-value: 9.19e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  66 TVT---GPPGCGKTQFCIMMSVLATLptrlggLEGAVLYIDTESaFTAERLVEIAESRFpqyfnteEKLLltsSRVHLCQ 142
Cdd:PRK09361   24 TITqiyGPPGSGKTNICLQLAVEAAK------NGKKVIYIDTEG-LSPERFKQIAGEDF-------EELL---SNIIIFE 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 143 ELTCEGLLQRLESLeEEIISKGVKLVIVDSIASVVRKEFDPqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITT 222
Cdd:PRK09361   87 PSSFEEQSEAIRKA-EKLAKENVGLIVLDSATSLYRLELED--EEDNSKLNRELGRQLTHLLKLARKHDLAVVITNQVYS 163
archRadB cd01394
archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional ...
 66-222 3.27e-17

archaeal RadB; The archaeal protein RadB shares similarity RadA, the archaeal functional homologue to the bacterial RecA. The precise function of RadB is unclear.


Pssm-ID: 410882 [Multi-domain]  Cd Length: 216  Bit Score: 78.90  E-value: 3.27e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  66 TVT---GPPGCGKTQFCIMMSVLATlptRLGGLegaVLYIDTEsAFTAERLVEIAESRFPQYFNTeekllLTSSRVHLCQ 142
Cdd:cd01394    20 TITqiyGPPGSGKTNICLQLAVEAA---KQGKK---VVYIDTE-GLSPERFQQIAGERFESIASN-----IIVFEPYSFD 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 143 ELtcEGLLQRLESLEEeiiSKGVKLVIVDSIASVVRKEfdpqlQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITT 222
Cdd:cd01394    88 EQ--GVAIQEAEKLLK---SDKVDLVVVDSATALYRLE-----LGDDSEANRELSRQMSKLLSIARKYDIPVVITNQVYS 157
recomb_radB TIGR02237
DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB ...
 66-283 4.47e-17

DNA repair and recombination protein RadB; This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).


Pssm-ID: 274047 [Multi-domain]  Cd Length: 209  Bit Score: 78.61  E-value: 4.47e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  66 TVT---GPPGCGKTQFCIMMSVLAtlpTRLGGLegaVLYIDTEsAFTAERLVEIAESRFPQYFnteEKLLLtsSRVHLCQ 142
Cdd:TIGR02237  13 TITqiyGPPGSGKTNICMILAVNA---ARQGKK---VVYIDTE-GLSPERFKQIAEDRPERAL---SNFIV--FEVFDFD 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 143 ELtcEGLLQRLESLeeeIISKGVKLVIVDSIASVVRKEfdpqLQGNIKERNKFLGKGASLLKYLSGEFSVPVILTNQITT 222
Cdd:TIGR02237  81 EQ--GVAIQKTSKF---IDRDSASLVVVDSFTALYRLE----LSDDRISRNRELARQLTLLLSLARKKNLAVVITNQVYT 151

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958786033 223 HLSGalpsqadlvspaDDLSPSEGASgssclvaaLGNtWSHCVntrLILQYLDSERRQILI 283
Cdd:TIGR02237 152 DVNN------------GTLRPLGGHL--------LEH-WSKVI---LRLEKFRGRRLATLE 188
RepA COG3598
RecA-family ATPase [Replication, recombination and repair];
67-300 5.06e-10

RecA-family ATPase [Replication, recombination and repair];


Pssm-ID: 442817 [Multi-domain]  Cd Length: 313  Bit Score: 59.53  E-value: 5.06e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  67 VTGPPGCGKTQFCIMMSVLATLPTRLGGLE---GAVLYIDTE--SAFTAERLVEIAESRFPQYFNTEEKLLLTSSRvhlc 141
Cdd:COG3598    18 LAGPPGTGKSFLALQLAAAVAAGGPWLGRRvppGKVLYLAAEddRGELRRRLKALGADLGLPFADLDGRLRLLSLA---- 93

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 142 QELTCEGLLQRlesLEEEIISKGVKLVIVDSIASVVRKEfdpqlqgniKERNKFLGKGASLLKYLSGEFSVPVILtnqiT 221
Cdd:COG3598    94 GDLDDTDDLEA---LERAIEEEGPDLVVIDPLARVFGGD---------ENDAEEMRAFLNPLDRLAERTGAAVLL----V 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 222 THLSGAlpsqadlvspADDLSPSEGASGSSCLVAAlgntwshcVNTRLILQYL-DSERRQILIAKSPVAPLTSFVYTIKG 300
Cdd:COG3598   158 HHTGKG----------GAGKDSGDRARGSSALRGA--------ARSVLVLSREkGEDLRVLTRAKSNYGPEIALRWDNGG 219
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 67-228 2.70e-05

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 43.52  E-value: 2.70e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033   67 VTGPPGCGKTQFCIMMSVLatlptrLGGLEGAVLYIDTESAFTAERLVEIAESRFPQYFNTEekllltssrvhlcQELTC 146
Cdd:smart00382   7 IVGPPGSGKTTLARALARE------LGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGS-------------GELRL 67

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  147 EGLLQRLESLeeeiiskGVKLVIVDSIASVVRKEFDPQLQGNIKERNKFLgkgasllkyLSGEFSVPVILTNQITTHLSG 226
Cdd:smart00382  68 RLALALARKL-------KPDVLILDEITSLLDAEQEALLLLLEELRLLLL---------LKSEKNLTVILTTNDEKDLGP 131


                   ..
gi 1958786033  227 AL 228
Cdd:smart00382 132 AL 133
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
67-222 4.36e-05

RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 44.14  E-value: 4.36e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  67 VTGPPGCGKTQFCimMSVLAtlptrlgglEGA-----VLYIDTESafTAERLVEIAESR---FPQYFNtEEKLLLtssrV 138
Cdd:COG0467    25 LSGPPGTGKTTLA--LQFLA---------EGLrrgekGLYVSFEE--SPEQLLRRAESLgldLEEYIE-SGLLRI----I 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 139 HLCQELTCEGLLQRLESLEEEIISKGVKLVIVDSIASVVRKEFDPQlqgnikERNKFLgkgASLLKYLSgEFSVPVILTN 218
Cdd:COG0467    87 DLSPEELGLDLEELLARLREAVEEFGAKRVVIDSLSGLLLALPDPE------RLREFL---HRLLRYLK-KRGVTTLLTS 156


                  ....
gi 1958786033 219 QITT 222
Cdd:COG0467   157 ETGG 160
RecA COG0468
RecA/RadA recombinase [Replication, recombination and repair];
69-180 2.16e-04

RecA/RadA recombinase [Replication, recombination and repair];


Pssm-ID: 440236 [Multi-domain]  Cd Length: 351  Bit Score: 42.46  E-value: 2.16e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  69 GPPGCGKTQFCimMSVLATLpTRLGGLegaVLYIDTESAFT---AERL-VEIaesrfpqyfnteEKLLLTssrvhlcQEL 144
Cdd:COG0468    70 GPESSGKTTLA--LHAIAEA-QKAGGI---AAFIDAEHALDpeyAKKLgVDI------------DNLLVS-------QPD 124

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1958786033 145 TCEgllQRLESLEEEIISKGVKLVIVDSIASVVRKE 180
Cdd:COG0468   125 TGE---QALEIAETLVRSGAVDLIVVDSVAALVPKA 157
RecA-like_Gp4D_helicase cd19483
RecA-like domain of Escherichia coli bacteriophage T7 Gp4D helicase; This family includes the ...
 66-265 4.64e-04

RecA-like domain of Escherichia coli bacteriophage T7 Gp4D helicase; This family includes the RecA-like domain of the Gp4D fragment of the Gene4 helicase-primase (Gp4) from bacteriophage T7. Gp4D (residues 241-566) is the minimal fragment of the Gp4 that forms hexameric rings, it contains the helicase domain and the linker connecting the helicase and primase domains. Helicases are ring-shaped oligomeric enzymes that unwind DNA at the replication fork; they couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands. This family belongs to the RecA-like NTPase superfamily which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410891 [Multi-domain]  Cd Length: 231  Bit Score: 41.02  E-value: 4.64e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  66 TVTGPPGCGKTQFC--IMMSVLATLPTRLGglegavlYIDTESAF--TAERLV-------EIAESRFPQYFNTEEKLLLT 134
Cdd:cd19483     2 TIGAGSGIGKSTIVreLAYHLITEHGEKVG-------IISLEESVeeTAKGLAgkhlgkpEPLELPRDDITEEEEDDAFD 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033 135 ----SSRVHLC---QELTCEGLLQRLESLeeeIISKGVKLVIVDSIASVVRKEfdpqlqgNIKERNKFLGKGASLLKYLS 207
Cdd:cd19483    75 nelgSGRFFLYdhfGSLDWDNLKEKIRYM---VKVLGCKVIVLDHLTILVSGL-------DSSDERKELDEIMTELAALV 144

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1958786033 208 GEFSVPVILTNqittHLSgalpsqadlvSPADDLSPSEGAS-------GSSclvaALGNtWSHCV 265
Cdd:cd19483   145 KELGVTIILVS----HLR----------RPGGGKGHEEGGEvsesdlrGSS----AIAQ-LSDYV 190
AAA_25 pfam13481
AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins.
 67-178 1.06e-03

AAA domain; This AAA domain is found in a wide variety of presumed DNA repair proteins.


Pssm-ID: 463892 [Multi-domain]  Cd Length: 193  Bit Score: 39.67  E-value: 1.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  67 VTGPPGCGKTQFCI-----MMSVLATLPTRLGGLEGAVLYIDTE-SAFTAERLVEIAESRFPQyfntEEKLLLTS--SRV 138
Cdd:pfam13481  38 LAGAPGTGKTTLALdlaaaVATGKPWLGGPRVPEQGKVLYVSAEgPADELRRRLRAAGADLDL----PARLLFLSlvESL 113

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1958786033 139 HLCQELTCEGLLQR-LESLEEEII-SKGVKLVIVDSIASVVR 178
Cdd:pfam13481 114 PLFFLDRGGPLLDAdVDALEAALEeVEDPDLVVIDPLARALG 155
KaiC-like cd01124
Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. ...
 67-219 3.06e-03

Circadian Clock Protein KaiC; KaiC is a circadian clock protein, most studied in cyanobacteria. KaiC, an autokinase, autophosphatase, and ATPase, is part of the core oscillator, composed of three proteins: KaiA, KaiB, and KaiC. The circadian oscillation is regulated via KaiC phosphorylation.


Pssm-ID: 410869 [Multi-domain]  Cd Length: 222  Bit Score: 38.40  E-value: 3.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  67 VTGPPGCGKTQFCimMSVLATlptrlGGLEGA-VLYIDTESafTAERLVEIAESrfpqyFNTEEKLLLTSSRVHLCQELT 145
Cdd:cd01124    24 LTGGPGTGKTLFG--LQFLYA-----GAKNGEpGLFFTFEE--SPERLLRNAKS-----FGWDFDEMEDEGKLIIVDAPP 89

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1958786033 146 CEGLLQRLESL----EEEIISKGVKLVIVDSIASvvrkefdpqLQGNIKERNKFLGKGASLLKYLSGEFsVPVILTNQ 219
Cdd:cd01124    90 TEAGRFSLDELlsriLSIIKSFKAKRVVIDSLSG---------LRRAKEDQMRARRIVIALLNELRAAG-VTTIFTSE 157
ATPase pfam06745
KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and ...
 67-193 4.85e-03

KaiC; This family is in the P-loop NTPase superfamily and is found in archaea, bacteria and eukaryotes. More than one copy is sometimes found in each protein. This family includes KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria.


Pssm-ID: 429095 [Multi-domain]  Cd Length: 231  Bit Score: 38.00  E-value: 4.85e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958786033  67 VTGPPGCGKTQFCIMMSVlatlptrlgglEGAV------LYIDTESafTAERLVEIAES---RFPQYFNtEEKLL---LT 134
Cdd:pfam06745  24 ITGGPGTGKTIFGLQFLY-----------NGALkygepgVFVTLEE--PPEDLRENARSfgwDLEKLEE-EGKLAiidAS 89

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1958786033 135 SSRVHLCQELTCEGLLQRLESLEEEIISKGVKLVIVDSIAS--------VVRKEFDpQLQGNIKERN 193
Cdd:pfam06745  90 TSGIGIAEVEDRFDLEELIERLREAIREIGAKRVVIDSITTlfyllkpaVAREILR-RLKRVLKGLG 155
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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